BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0020.0519.p (374 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310376|ref|YP_003774468.1| outer membrane porin [Herbaspir... 709 0.0 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 119 3e-28 gi|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 108 8e-25 gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspir... 103 2e-23 gi|300313545|ref|YP_003777637.1| porin precursor transmembrane p... 98 1e-21 >gi|300310376|ref|YP_003774468.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 355 Score = 709 bits (1830), Expect = 0.0, Method: Compositional matrix adjust. Identities = 354/355 (99%), Positives = 355/355 (100%) Query: 20 MGAFSAQAQAQTSSVTIYGRVVAGVDIMTNVPKTDGSGTTGTRIRAASNQWGTSMIGVKG 79 MGAFSAQAQAQTSSVTIYGRVVAGVDIMTNVPKTDGSGTTGTRIRAASNQWGTSMIGVKG Sbjct: 1 MGAFSAQAQAQTSSVTIYGRVVAGVDIMTNVPKTDGSGTTGTRIRAASNQWGTSMIGVKG 60 Query: 80 TEDLGGGTNAFFLLESGFGSTTGGLNGTDINGTSLFNRRSYVGLSSANAGTLKLGKNLFI 139 TEDLGGGTNAFFLLESGFGSTTGGLNGTDINGTSLFNRRSYVGLSSANAG+LKLGKNLFI Sbjct: 61 TEDLGGGTNAFFLLESGFGSTTGGLNGTDINGTSLFNRRSYVGLSSANAGSLKLGKNLFI 120 Query: 140 NNDVWFLDPTGQQWIGTANLVRGRNWPGASNVIEYTTPTFGGFGATVQTSLGEAAGSFSK 199 NNDVWFLDPTGQQWIGTANLVRGRNWPGASNVIEYTTPTFGGFGATVQTSLGEAAGSFSK Sbjct: 121 NNDVWFLDPTGQQWIGTANLVRGRNWPGASNVIEYTTPTFGGFGATVQTSLGEAAGSFSK 180 Query: 200 GGTSTKYGRKDGLSLVYQNNGLELRGIYDVIRDANGRYTDVYDTSKELILGGTYKIDKLK 259 GGTSTKYGRKDGLSLVYQNNGLELRGIYDVIRDANGRYTDVYDTSKELILGGTYKIDKLK Sbjct: 181 GGTSTKYGRKDGLSLVYQNNGLELRGIYDVIRDANGRYTDVYDTSKELILGGTYKIDKLK 240 Query: 260 MFLGYENLRAPDANTASGVPDRVNHYWLGANYDVTPQFQLVGSVFHVNANNGNGSANLFM 319 MFLGYENLRAPDANTASGVPDRVNHYWLGANYDVTPQFQLVGSVFHVNANNGNGSANLFM Sbjct: 241 MFLGYENLRAPDANTASGVPDRVNHYWLGANYDVTPQFQLVGSVFHVNANNGNGSANLFM 300 Query: 320 AGVNYFLSKRTLLYVGGGTMRNGNNANYSLEADSSTGGGKGTNQTGGYFGIAHSF 374 AGVNYFLSKRTLLYVGGGTMRNGNNANYSLEADSSTGGGKGTNQTGGYFGIAHSF Sbjct: 301 AGVNYFLSKRTLLYVGGGTMRNGNNANYSLEADSSTGGGKGTNQTGGYFGIAHSF 355 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 119 bits (299), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 126/381 (33%), Positives = 177/381 (46%), Gaps = 49/381 (12%) Query: 12 KTLCALALMGAFSAQAQAQTSSVTIYGRVVAGVDIMTNVPKTDGSGTTGTRIRAASNQWG 71 KTL A++ + A AQ SSV+IYG + G+ ++ PK+ G G R+ + Q Sbjct: 3 KTLLVAAMLAGGATTAHAQ-SSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQ-- 59 Query: 72 TSMIGVKGTEDLGGGTNAFFLLESGFGSTTGGLNGTDINGTSLFNRRSYVGLSSANAGTL 131 S IG KGTEDLGGG NAFF LE+GFG+ G L G LF R+S+VGL S G+L Sbjct: 60 GSRIGFKGTEDLGGGMNAFFTLETGFGADDGSLG----QGGLLFGRQSFVGLGSTQWGSL 115 Query: 132 KLGKNL-FINN-----DVWFLDPTGQ-QWIGTANLVRG-----RNWPG--ASNVIEYTTP 177 +G+ F+ N + L P G W A+ G + G +N I+Y + Sbjct: 116 SVGRQYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSA 175 Query: 178 TFGGFGATVQTSLGEAAGSFSKGGTSTKYGRKDGLSLVYQNNGLELRGIYDVIRDANGRY 237 FGGF LGE AG+ + G T + G+ Y N Y I+D+ G + Sbjct: 176 KFGGFSFGAMVGLGETAGNNNAGRTVSATGQ-------YDNGPFSGALAYTDIKDSTGSF 228 Query: 238 -TDVYDTSKELILGGTYKIDKLKMFLGYENLRAPDANTASGVPDRVNHYWLGANYDVTPQ 296 T +Y G Y+I F ++ + NT++ + Y LG Y +TP Sbjct: 229 STRIYGG------GARYQIGAFTPFGVVTQVK--NTNTSA----KATTYELGTVYALTPL 276 Query: 297 FQLVGSVFHVNANNGNGSANLFMAGVNYFLSKRTLLYVGGGTMRNGNNANYSLEA---DS 353 + L + N G G+A +A V+Y +SKRT LYVG R+ Y + S Sbjct: 277 WDLAAAYQFQKRNQGVGNAQALVATVDYKISKRTDLYVGAVYDRDKGYNAYPVFGGGIQS 336 Query: 354 STGGGKGTNQTGGYFGIAHSF 374 +TG NQT G+ H F Sbjct: 337 ATG-----NQTALRLGMRHRF 352 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 108 bits (269), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 121/365 (33%), Positives = 160/365 (43%), Gaps = 42/365 (11%) Query: 24 SAQAQAQTSSVTIYGRVVAGVDIMTNVPKTDGSGTTGTRIRAASNQWGTSMIGVKGTEDL 83 S QAQ SSVTIYG V GV+ + N G G+ R S TS IG +GTEDL Sbjct: 18 SVQAQ---SSVTIYGLVDTGVEYLNNA----GPNGAGSVTRMTSGATNTSRIGFRGTEDL 70 Query: 84 GGGTNAFFLLESGFGSTTGGLNGTDINGTSLFNRRSYVGLSSANAGTLKLGKNLFINNDV 143 GGG A F LE+GF G +G + LFNR+S VGL G + G++ D Sbjct: 71 GGGLKALFQLENGFKLDNGSFDG---DANQLFNRQSTVGL-EGGFGRVVAGRSYSTTYD- 125 Query: 144 WFL---DPTG----QQWIGTANLV--RGRNWP-GASNVIEYTTPTFGGFGATVQTSLGEA 193 FL DP G W TA R P G SN+++Y F G GE Sbjct: 126 -FLGPFDPMGYSANYSWATTAGATGNRKDGMPTGVSNLVKYQGE-FSGVKIGAMYGFGEV 183 Query: 194 AGSFSKGGTSTKYGRKDGLSLVYQNNGLELRGIYDVIRDANGRYTDVYDTSKELILGGTY 253 AG T+ G K G+ L + + YD A T YD + L Y Sbjct: 184 AG-------ETRNGAKYGVGLGWGTGPFSVVATYDRNNSATATNTP-YDRATSAHLAAGY 235 Query: 254 KIDKLKMF-LGYENLRAPDANTASGVPD-RVNHYWLGANYDVTPQFQLVGSVFHVNANNG 311 + + F LGY R + A+G D R + +W GA Y TP L+G++++ N N Sbjct: 236 QPSEAWKFNLGY---RYYKKSLATGAADLRSDFFWGGAAYKFTPAMTLIGAIYYQNIKNV 292 Query: 312 NGSANLFMAG--VNYFLSKRTLLYVGGGTMRNGNNANYSLEADSSTGGGKGTNQTGGYFG 369 A+ M + Y +SKRT LY+ + N L D + G G++Q G G Sbjct: 293 ANDADPIMYSLRLKYAMSKRTDLYLSTAYAKAKNGQLVGLSRDDA---GYGSSQFGMTLG 349 Query: 370 IAHSF 374 + H F Sbjct: 350 MQHRF 354 >gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 369 Score = 103 bits (258), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 122/395 (30%), Positives = 175/395 (44%), Gaps = 47/395 (11%) Query: 1 MKQVKPSFIGAKTLCALALMGAFSAQAQAQTSSVTIYGRVVAGVDIMTNVPKTDGSGTTG 60 MK +K + AL M A +QAQ SVT+YG + GV+ ++NV G+G G Sbjct: 1 MKALK------AIIAALLTMSATLSQAQ----SVTLYGIIDTGVEYVSNVSNV-GAGQQG 49 Query: 61 TRIRAASNQWGTSMIGVKGTEDLGGGTNAFFLLESGFGSTTGGLNGTDINGTSLFNRRSY 120 S IG++G+EDLGGG + F+LESGF +G LN G +F R +Y Sbjct: 50 LLRVPNLTATTPSRIGLRGSEDLGGGLRSVFMLESGFAPDSGALN----QGGRMFGRIAY 105 Query: 121 VGLSSANAGTLKLGKN----LFINNDVWFLDPTGQQWIGTANLVRGRNWPGASNVIEYTT 176 VGLS + G + G+ L+ D D G G L R A N I Y Sbjct: 106 VGLSD-HWGQVSFGRQATMLLWATLDS---DILGANVYGANALDNYRPNARADNSIAYRG 161 Query: 177 PTFGGF--GATVQTSLGEAAGSFSKGGTSTKYGRKDGLSLVYQNNGLELRG--------- 225 +FG F G T + GT+ G + G SL + L ++ Sbjct: 162 -SFGAFTLGGTYSFGRDTVNAGQNPAGTNCA-GEQAGDSLACREWSLMVKYDTAAWGASL 219 Query: 226 IYDVIRDANGRYTDVYDTS---KELILGGTYKIDKLKMFLGYENLRAPDANTASGVPDRV 282 YD +R G + + ++LG K D+LK+ +G +LR + S + Sbjct: 220 AYDTLRGGKGAAAGLSSSQLSDSRMLLGAYIKADRLKVGIG-GSLRHNQGSALS----KS 274 Query: 283 NHYWLGANYDVTPQFQLVGSVFHVNANNGNGSANLFMAGVNYFLSKRTLLYVGGGTMRNG 342 Y+ G +YD+TP L G +++++ ++ A L Y LS RT LY+ GG + N Sbjct: 275 QLYYAGLSYDLTPTLNLAGQLYYLHYDDSANKAWLGALRATYSLSARTALYLTGGFIDNR 334 Query: 343 NNANYSLEADSSTG---GGKGTNQTGGYFGIAHSF 374 +N S+ A S G G NQ G GI HSF Sbjct: 335 GQSNLSVSAGGSVGTANPAPGGNQFGMMAGIRHSF 369 >gi|300313545|ref|YP_003777637.1| porin precursor transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 360 Score = 98.2 bits (243), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 114/358 (31%), Positives = 160/358 (44%), Gaps = 61/358 (17%) Query: 12 KTLCALALMGAFSAQAQAQTSSVTIYGRVVAGVDIMTNVPKTDGSGTTGTRIRAASNQWG 71 KT ALAL A + SSVT+ G V A V M N SG TG++ S Sbjct: 3 KTRLALALASCMVAGSAMAQSSVTVSGLVDAYVGSMKN------SGDTGSKATVGSGGMT 56 Query: 72 TSMIGVKGTEDLGGGTNAFFLLESGFGSTTGGLNGTDINGTSLFNRRSYVGLSSANAGTL 131 TS IG KG EDLGGG A F L S F + TG G +LF+R + VGL + + G + Sbjct: 57 TSWIGFKGIEDLGGGLRAEFALTSFFQADTGAYG--RFGGDNLFSRDANVGL-AGDFGRV 113 Query: 132 KLGKNL---FINNDVWFLDPTGQQWIGTANLVR---------GRNW-------PGASNVI 172 LG+ L F+ ++ +P G + + ++ R W G SN + Sbjct: 114 SLGRGLAPSFLPTVLF--NPFGDSFTFSPLVLHVYTPSGNFGSRTWTQANAADSGWSNQV 171 Query: 173 EYTTPTFGGFGATVQTSLGEAAGSFSKGGTSTKYGRKD-GLSLVYQNNGLELRGIY---- 227 YTTP FGG A V GE AG + G+K+ G++ +Y N GL L G+Y Sbjct: 172 IYTTPKFGGLQANVHYQFGEVAG---------QSGKKNIGVNALYFNGGLALTGLYFDAQ 222 Query: 228 -------DVIRDANGRYTDVYDTSKELILGGTYKIDKLKMFLGYENLRAPDANTASGVPD 280 I DA ++ + K +LG TY +K++ Y+N + +T +G P Sbjct: 223 VSNPNSGAAIIDATSPFSSI-TRQKTWMLGATYDFQVVKLYGTYQNSK----DTTAGNPQ 277 Query: 281 RVNHYW-LGANYDVTPQFQLVGSVFHVNANN----GNGSANLFMAGVNYFLSKRTLLY 333 + + LG + V L G + G+ S N G +YF+SKRT LY Sbjct: 278 AKDKLFSLGLSAPVGNGSILAGFARTKRTGDLLAGGDVSRNTTSVGYDYFMSKRTDLY 335 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.315 0.134 0.398 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,190,962 Number of extensions: 55272 Number of successful extensions: 156 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 116 Number of HSP's successfully gapped: 14 Length of query: 374 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 287 Effective length of database: 1,207,925 Effective search space: 346674475 Effective search space used: 346674475 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (22.0 bits) S2: 131 (55.1 bits)